1. Annotated protein coding genes: Group of genes Name of genes Subunits of ATP synthase atpA, atpB, atpE, atpF, atpH, atpI Subunits of NADH-dehydrogenase ndhA, ndhB, ndhC, ndhD, ndhD_copy2, ndhE, ndhF, ndhG, ndhH, ndhI, ndhJ, ndhK Subunits of cytochrome b/f complex petA, petB, petD, petG, petL, petN Subunits of photosystem I psaA, psaB, psaC, psaI, psaJ Subunits of photosystem II psbA, psbB, psbC, psbD, psbE, psbF, psbH, psbI, psbJ, psbK, psbL, psbM, psbN, psbT, psbZ, ycf3 Large subunit of ribosome rpl14, rpl16, rpl2, rpl20, rpl22, rpl23, rpl23_copy2, rpl32, rpl33, rpl36 Small subunit of ribosome rps11, rps12, rps12_copy2, rps14, rps15, rps16, rps18, rps19, rps19_copy2, rps2, rps3, rps4, rps7, rps7_copy2, rps8 DNA dependent RNA polymerase rpoA, rpoB, rpoC1, rpoC2 Subunit of rubisco rbcL c-type cytochrom synthesis gene ccsA Envelop membrane protein cemA Maturase matK Protease clpP Subunit of Acetyl-CoA-carboxylase accD Translational initiation factor infA Conserved open reading frames ycf15, ycf15_copy2, ycf15_copy3, ycf15_copy4, ycf4 Other genes None Possible missing protein coding genes: Group of genes Name of genes Subunits of ATP synthase None Subunits of NADH-dehydrogenase None Subunits of cytochrome b/f complex None Subunits of photosystem I None Subunits of photosystem II None Large subunit of ribosome None Small subunit of ribosome None DNA dependent RNA polymerase None Subunit of rubisco None c-type cytochrom synthesis gene None Envelop membrane protein None Maturase None Protease None Subunit of Acetyl-CoA-carboxylase None Translational initiation factor None Conserved open reading frames ycf1, ycf2 Other genes None 2. Multicopy genes with different lengths: Genes Length Location rps12 375 join{[72809:72941](-), [100272:100515](-)} rps12_copy2 411 join{[72809:72941](-), [141698:141977](+)} rps19 279 [87197:87476](-) rps19_copy2 285 [155548:155833](+) ycf15 249 join{[95059:95212](+), [95513:95609](+)} ycf15_copy2 192 [101533:101725](-) ycf15_copy3 192 [140524:140716](+) ycf15_copy4 138 [146282:146420](-) 3. Common intron-contained genes: Genes exons exon1 exon2 exon3 atpF (2/2) [13743:13890](-) [12576:13000](-) clpP (3/3) [75091:75161](-) [73971:74264](-) [73101:73326](-) ndhA (2/2) [123422:123977](-) [121776:122314](-) ndhB (2/2) [96663:97437](+) [98122:98876](+) petB (1/2) [78810:79496](+) petD (1/2) [80409:80933](+) rpl16 (2/2) [85858:85866](-) [84433:84843](-) rpl2 (2/2) [153991:154381](+) [155011:155480](+) rpoC1 (2/2) [24314:24748](-) [21916:23526](-) rps12 (2/3) [72810:72941](-) [100273:100515](-) rps12_copy2 (2/3) [72810:72941](-) [141699:141977](+) rps16 (2/2) [6139:6186](-) [5041:5253](-) ycf3 (3/3) [45881:46007](-) [44935:45164](-) [44007:44159](-) ### The exon column shows the number of (actual exons/expected exons). ### Uncommon intron-contained genes: ycf15 2 [95060:95212](+) [95514:95609](+)] 4. Genes with internal stop codon: None 5. Genes with nonstandard start codon: Genes Start codon psbC GTG petB ATA rps19 GTG ycf15 GTG ndhD GTG ndhD_copy2 ATT rps19_copy2 GTG 6. Genes with nonstandard stop codon: Genes Stop codon None None 7. Conclusion This genome has 123 genes (105 unique genes). Including: 86 protein-coding genes (78 are unique) 29 tRNA genes (23 are unique) 8 rRNA genes (4 are unique) Details are as follows: 86 protein-coding genes (78 are unique) Genes Length Location accD 1482 [59225:60706](+) atpA 1524 [10999:12522](-) atpB 1494 [54907:56400](-) atpE 402 [54509:54910](-) atpF 573 [13743:13890](-) [12576:13000](-) atpH 246 [14380:14625](-) atpI 744 [15702:16445](-) ccsA 969 [116295:117263](+) cemA 699 [63105:63803](+) clpP 591 [75091:75161](-) [73971:74264](-) [73101:73326](-) infA 168 [83066:83233](-) matK 1518 [1925:3442](-) ndhA 1095 [123422:123977](-) [121776:122314](-) ndhB 1530 [96663:97437](+) [98122:98876](+) ndhC 363 [52073:52435](-) ndhD 1521 [117556:119076](-) ndhD_copy2 1521 [143352:144872](+) ndhE 306 [119714:120019](-) ndhF 2235 [112191:114425](-) ndhG 537 [120265:120801](-) ndhH 1182 [123979:125160](-) ndhI 504 [121192:121695](-) ndhJ 477 [50746:51222](-) ndhK 684 [51336:52019](-) petA 963 [64017:64979](+) petB 687 [78810:79496](+) petD 525 [80409:80933](+) petG 114 [69155:69268](+) petL 96 [68876:68971](+) petN 90 [29984:30073](+) psaA 2253 [41130:43382](-) psaB 2205 [38900:41104](-) psaC 246 [119224:119469](-) psaI 114 [61438:61551](+) psaJ 135 [70082:70216](+) psbA 1062 [295:1356](-) psbB 1527 [75556:77082](+) psbC 1452 [35105:36556](+) psbD 1062 [34126:35187](+) psbE 252 [67253:67504](-) psbF 120 [67124:67243](-) psbH 222 [77669:77890](+) psbI 111 [8843:8953](+) psbJ 123 [66719:66841](-) psbK 201 [8273:8473](+) psbL 117 [66985:67101](-) psbM 105 [30664:30768](-) psbN 132 [77433:77564](-) psbT 108 [77265:77372](+) psbZ 189 [37239:37427](+) rbcL 1449 [57148:58596](+) rpl14 318 [83989:84306](-) rpl16 420 [85858:85866](-) [84433:84843](-) rpl2 861 [153991:154381](+) [155011:155480](+) rpl20 360 [71682:72041](-) rpl22 486 [86667:87152](-) rpl23 282 [87563:87844](-) rpl23_copy2 282 [153691:153972](+) rpl32 174 [115445:115618](+) rpl33 201 [70702:70902](+) rpl36 114 [82775:82888](-) rpoA 984 [81192:82175](-) rpoB 3213 [24775:27987](-) rpoC1 2046 [24314:24748](-) [21916:23526](-) rpoC2 4173 [17577:21749](-) rps11 417 [82241:82657](-) rps12 375 [72810:72941](-) [100273:100515](-) rps12_copy2 411 [72810:72941](-) [141699:141977](+) rps14 303 [38459:38761](-) rps15 273 [125268:125540](-) rps16 261 [6139:6186](-) [5041:5253](-) rps18 306 [71108:71413](+) rps19 279 [87198:87476](-) rps19_copy2 285 [155549:155833](+) rps2 711 [16659:17369](-) rps3 657 [86026:86682](-) rps4 606 [47224:47829](-) rps7 468 [99200:99667](-) rps7_copy2 468 [142583:143050](+) rps8 411 [83350:83760](-) ycf15 249 [95060:95212](+) [95514:95609](+) ycf15_copy2 192 [101534:101725](-) ycf15_copy3 192 [140525:140716](+) ycf15_copy4 138 [146283:146420](-) ycf3 510 [45881:46007](-) [44935:45164](-) [44007:44159](-) ycf4 555 [61990:62544](+) 29 tRNA genes (23 are unique) Genes Location trnH-GTG [1:71](-) trnQ-TTG [7826:7897](-) trnS-GCT [9091:9178](-) trnR-TCT [10751:10822](+) trnC-GCA [29215:29285](+) trnD-GTC [31294:31367](-) trnY-GTA [31813:31896](-) trnE-TTC [31956:32028](-) trnT-GGT [32806:32877](+) trnS-TGA [36799:36891](-) trnG-GCC [37975:38045](+) trnM-CAT [38210:38283](-) trnS-GGA [46843:46929](+) trnT-TGT [48199:48271](-) trnF-GAA [50238:50310](+) trnM-CAT_copy2 [54192:54264](+) trnW-CCA [69397:69470](-) trnP-TGG [69655:69728](-) trnI-CAT [88010:88083](-) trnL-CAA [95988:96068](-) trnV-GAC [102324:102395](+) trnR-ACG [110183:110256](+) trnN-GTT [110861:110932](-) trnL-TAG [116102:116181](+) trnN-GTT_copy2 [131321:131392](+) trnR-ACG_copy2 [131994:132067](-) trnV-GAC_copy2 [139855:139926](-) trnL-CAA_copy2 [145463:145543](+) trnI-CAT_copy2 [153452:153525](+) 8 rRNA genes (4 are unique) Genes Location rrn16S [102631:104121](-) rrn23S [106549:109357](-) rrn4.5S [109456:109721](-) rrn5S [109815:109945](+) rrn5S_copy2 [132305:132435](-) rrn4.5S_copy2 [132529:132794](+) rrn23S_copy2 [132893:135701](+) rrn16S_copy2 [138129:139619](+) This genome has 12 genes with intron(s). Details are as follows: 10 gene(s) have 1 intron(s) Genes Exons rps12 [72810:72941](-) [100273:100515](-) rps16 [6139:6186](-) [5041:5253](-) atpF [13743:13890](-) [12576:13000](-) rpoC1 [24314:24748](-) [21916:23526](-) rps12_copy2 [72810:72941](-) [141699:141977](+) rpl16 [85858:85866](-) [84433:84843](-) ycf15 [95060:95212](+) [95514:95609](+) ndhB [96663:97437](+) [98122:98876](+) ndhA [123422:123977](-) [121776:122314](-) rpl2 [153991:154381](+) [155011:155480](+) 2 gene(s) have 2 intron(s) Genes Exons ycf3 [45881:46007](-) [44935:45164](-) [44007:44159](-) clpP [75091:75161](-) [73971:74264](-) [73101:73326](-)